Closed k-florek closed 2 years ago
Issue in NCBI scrubber identified; output incompatible with downstream tasks
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Issue with the NCBI Scrubber identified and addressed in latest docker release: ncbi/sra-human-scrubber:1.0.2021-04-19 We incorporated the updated tool into a two tasks (pe/se) and incorporated these into our Titan Illumina PE, ONT, and ClearLabs workflows--the scrubber is not yet compatible with short-read data expected for the Titan Illumina SE workflow.
Issue closed in Theiagen repo with latest PR: https://github.com/theiagen/public_health_viral_genomics/pull/10
Inclusion of a Task to remove human reads is needed to prepare fastq files for upload into SRA. The ideal choice is to use the NCBI SRA Human Scrubber tool.
Process for this issues should be: